A Core Genome Multilocus Sequence Typing Scheme for <i>Proteus mirabilis</i>.

Sheng Lin Chen; Yu Tong Kang; Yi He Liang; Xiao Tong Qiu; Zhen Jun LI

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A Core Genome Multilocus Sequence Typing Scheme for Proteus mirabilis.

Author: Sheng Lin CHEN ^{1
,

2} ; Yu Tong KANG ² ; Yi He LIANG ³ ; Xiao Tong QIU ² ; Zhen Jun LI ^{1
,

2}
Author Information

1. School of Public Health, Shanxi Medical University, Taiyuan 030001, Shanxi, China
2. State Key Laboratory for Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing 102206, China.
3. School of Public Health, Shanxi Medical University, Taiyuan 030001, Shanxi, China.
Publication Type:Journal Article
Keywords: CgMLST; ChewBBACA; Clonal evolution; Genotyping; Proteus mirabilis
MeSH: Genome, Bacterial; Proteus mirabilis/genetics*; Multilocus Sequence Typing; Molecular Epidemiology; Genotype
From: Biomedical and Environmental Sciences 2023;36(4):343-352
CountryChina
Language:English
Abstract: OBJECTIVE:A core genome multilocus sequence typing (cgMLST) scheme to genotype and identify potential risk clonal groups (CGs) in Proteus mirabilis.
METHODS:In this work, we propose a publicly available cgMLST scheme for P. mirabilis using chewBBACA. In total 72 complete P. mirabilis genomes, representing the diversity of this species, were used to set up a cgMLST scheme targeting 1,842 genes, 635 unfinished (contig, chromosome, and scaffold) genomes were used for its validation.
RESULTS:We identified a total of 205 CGs from 695 P. mirabilis strains with regional distribution characteristics. Of these, 159 unique CGs were distributed in 16 countries. CG20 and CG3 carried large numbers of shared and unique antibiotic resistance genes. Nine virulence genes ( papC, papD, papE, papF, papG, papH, papI, papJ, and papK) related to the P fimbrial operon that cause severe urinary tract infections were only found in CG20. These CGs require attention due to potential risks.
CONCLUSION:This research innovatively performs high-resolution molecular typing of P. mirabilis using whole-genome sequencing technology combined with a bioinformatics pipeline (chewBBACA). We found that the CGs of P. mirabilis showed regional distribution differences. We expect that our research will contribute to the establishment of cgMLST for P. mirabilis.